Fig. 2: Deletion of PHF8 activates endogenous antiviral and interferon responses.
From: Loss of PHF8 induces a viral mimicry response by activating endogenous retrotransposons
a Gene ontology (GO) analysis of RNA-seq data showing top 10 pathways that are upregulated in Phf8 KO CT26 cells compared with the control cells (left) and top 10 pathways that are downregulated in Phf8 KO + Phf8 CT26 cells compared with Phf8 KO cells (right). Graph displays category scores as −log10 (P value) from Fisher’s exact test. Red (upregulated GO terms) and blue (downregulated GO terms) indicates GO terms related to antiviral response or interferon (IFN) response. n = 3; (-), negative; resp., response; reg., regulation. b KEGG pathway analysis of RNA-seq data showing viral infection and host-defense responses of upregulated differentially expressed genes in Phf8 KO CT26 cells compared with the control cells (left), and corresponding pathways of downregulated differentially expressed genes in Phf8 KO + Phf8 CT26 cells compared with Phf8 KO cells (right), n = 3; graph displays category scores as –log2 (P value) from Fisher’s exact test and gene number. c KEGG pathway analysis of RNA-seq data showing upregulated differentially expressed genes in shPhf8 CT26 tumors compared with the control tumors. Graph displays category scores as −log10 (P value) from Fisher’s exact test. Red indicates inflammation- and infection-related pathways and intracellular virus sensing signals. d Real-time quantitative PCR (RT-qPCR) analysis of transcripts of selected IFNs and ISGs in the control, Phf8 KO and Phf8 KO + Phf8 murine tumor cells. e Western blot analysis of DNA and RNA sensors as well as interferon response related protein expression in the control, Phf8 KO, and Phf8 KO + Phf8 murine tumor cells. f Western blot analysis of the expression of DNA and RNA sensors and downstream signaling proteins in the vector control and Phf8 KO CT26 cells treated with or without 20 ng/mL IFN-γ for 24 hours. g RT-qPCR analysis of transcripts of selected ISGs in the control and Phf8 KO CT26 cells treated with or without IFN-γ. For d and g, values are expressed as mean ± SEM. n = 3 biologically independent samples. Unpaired two-sided Student’s t-test in d and g. The immunoblots in e and f are representative of three independent experiments. Source data are provided as a Source Data file.
